public TableConfig getConfig(FeatureType wantFeatureType, NetcdfDataset ds, Formatter errlog)
      throws IOException {
    TableConfig topTable = new TableConfig(Table.Type.Top, "singleTrajectory");

    CoordinateAxis coordAxis = CoordSysEvaluator.findCoordByType(ds, AxisType.Time);
    if (coordAxis == null) {
      errlog.format("Cant find a time coordinate");
      return null;
    }
    final Dimension innerDim = coordAxis.getDimension(0);
    boolean obsIsStruct = Evaluator.hasNetcdf3RecordStructure(ds) && innerDim.isUnlimited();

    TableConfig obsTable = new TableConfig(Table.Type.Structure, innerDim.getShortName());
    obsTable.dimName = innerDim.getShortName();
    obsTable.time = coordAxis.getFullName();
    obsTable.structName = obsIsStruct ? "record" : innerDim.getShortName();
    obsTable.structureType =
        obsIsStruct
            ? TableConfig.StructureType.Structure
            : TableConfig.StructureType.PsuedoStructure;
    CoordSysEvaluator.findCoords(
        obsTable,
        ds,
        new CoordSysEvaluator.Predicate() {
          public boolean match(CoordinateAxis axis) {
            return innerDim.equals(axis.getDimension(0));
          }
        });

    topTable.addChild(obsTable);
    return topTable;
  }
Exemple #2
0
  /** Create a DAS for this netcdf file */
  NcDAS(NetcdfFile ncfile) {

    // Variable attributes
    Iterator iter = ncfile.getVariables().iterator();
    while (iter.hasNext()) {
      Variable v = (Variable) iter.next();
      doVariable(v, null);
    }

    // Global attributes
    opendap.dap.AttributeTable gtable = new opendap.dap.AttributeTable("NC_GLOBAL");
    int count = addAttributes(gtable, null, ncfile.getGlobalAttributes().iterator());
    if (count > 0)
      try {
        addAttributeTable("NC_GLOBAL", gtable);
      } catch (AttributeExistsException e) {
        log.error("Cant add NC_GLOBAL", e);
      }

    // unlimited  dimension
    iter = ncfile.getDimensions().iterator();
    while (iter.hasNext()) {
      Dimension d = (Dimension) iter.next();
      if (d.isUnlimited()) {
        opendap.dap.AttributeTable table = new opendap.dap.AttributeTable("DODS_EXTRA");
        try {
          table.appendAttribute("Unlimited_Dimension", opendap.dap.Attribute.STRING, d.getName());
          addAttributeTable("DODS_EXTRA", table);
        } catch (Exception e) {
          log.error("Error adding Unlimited_Dimension =" + e);
        }
        break;
      }
    }

    // unused dimensions
    opendap.dap.AttributeTable dimTable = null;
    iter = ncfile.getDimensions().iterator();
    while (iter.hasNext()) {
      Dimension d = (Dimension) iter.next();
      if (null == usedDims.get(d.getName())) {
        if (dimTable == null) dimTable = new opendap.dap.AttributeTable("EXTRA_DIMENSION");
        try {
          dimTable.appendAttribute(
              d.getName(), opendap.dap.Attribute.INT32, Integer.toString(d.getLength()));
        } catch (Exception e) {
          log.error("Error adding Unlimited_Dimension =" + e);
        }
      }
    }
    if (dimTable != null)
      try {
        addAttributeTable("EXTRA_DIMENSION", dimTable);
      } catch (AttributeExistsException e) {
        log.error("Cant add EXTRA_DIMENSION", e);
      }
  }
  private void createDataVariables(List<VariableSimpleIF> dataVars) throws IOException {

    /* height variable
    Variable heightVar = ncfile.addStringVariable(altName, recordDims, 20);
    ncfile.addVariableAttribute(heightVar, new Attribute("long_name", "height of observation"));
    ncfile.addVariableAttribute(heightVar, new Attribute("units", altUnits));  */

    Variable v = ncfile.addVariable(parentProfileIndex, DataType.INT, recordDimName);
    ncfile.addVariableAttribute(v, new Attribute("long_name", "index of parent profile"));

    v = ncfile.addVariable(nextObsName, DataType.INT, recordDimName);
    ncfile.addVariableAttribute(
        v, new Attribute("long_name", "record number of next obs in linked list for this profile"));

    // find all dimensions needed by the data variables
    for (VariableSimpleIF var : dataVars) {
      List<Dimension> dims = var.getDimensions();
      dimSet.addAll(dims);
    }

    // add them
    for (Dimension d : dimSet) {
      if (!d.isUnlimited())
        ncfile.addDimension(d.getName(), d.getLength(), d.isShared(), false, d.isVariableLength());
    }

    // add the data variables all using the record dimension
    for (VariableSimpleIF oldVar : dataVars) {
      List<Dimension> dims = oldVar.getDimensions();
      StringBuffer dimNames = new StringBuffer(recordDimName);
      for (Dimension d : dims) {
        if (!d.isUnlimited()) dimNames.append(" ").append(d.getName());
      }
      Variable newVar =
          ncfile.addVariable(oldVar.getName(), oldVar.getDataType(), dimNames.toString());

      List<Attribute> atts = oldVar.getAttributes();
      for (Attribute att : atts) {
        ncfile.addVariableAttribute(newVar, att);
      }
    }
  }
  public void testDimensions(NetcdfFile ncfile) {
    System.out.println("ncfile = \n" + ncfile);

    Dimension latDim = ncfile.findDimension("lat");
    assert null != latDim;
    assert latDim.getShortName().equals("lat");
    assert latDim.getLength() == 3;
    assert !latDim.isUnlimited();

    Dimension lonDim = ncfile.findDimension("lon");
    assert null != lonDim;
    assert lonDim.getShortName().equals("lon");
    assert lonDim.getLength() == 4;
    assert !lonDim.isUnlimited();

    Dimension timeDim = ncfile.findDimension("time");
    assert null != timeDim;
    assert timeDim.getShortName().equals("time");
    assert timeDim.getLength() == 3 : timeDim.getLength();
  }
Exemple #5
0
 /** Instances which have same contents are equal. Careful!! this is not object identity !! */
 @Override
 public boolean equals(Object oo) {
   if (this == oo) return true;
   if (!(oo instanceof Dimension)) return false;
   Dimension other = (Dimension) oo;
   if ((g != null) && !g.equals(other.getGroup())) return false;
   if ((getName() == null) && (other.getName() != null)) return false;
   if ((getName() != null) && !getName().equals(other.getName())) return false;
   return (getLength() == other.getLength())
       && (isUnlimited() == other.isUnlimited())
       && (isVariableLength() == other.isVariableLength())
       && (isShared() == other.isShared());
 }